Phenetic and Phylogenetic Analysis of Kocuria palustris and Kocuria rhizophila Strains isolated from Healthy and Thalassemia Persons
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Abstract
Objective: The normal habitat of Kocuria palustris and K. rhizophila include
mammalian skin, soil and rhizoplane. The aim of this study is to find the relatedness
among several strains of K. palustris and K. rhizophila isolated from healthy and
thalassemia patients according to the biochemical tests, make phylogenetic analysis
to construct a database for whole cell protein band profile of these species.
Methods: Ninety samples were collected from healthy and thalassemia patients
skin in April of 2013, seventeen samples were revealed bacterial isolates. The
diagnosis was performed using conventional biochemical tests , eight of them
analyzed according to their 16S rRNA gene sequence and used as reference to
confirm the diagnosis of other isolates depending on phenetic and protein bands
clustering patterns. Three different software used , IBM SPSS v.19, MEGA 5.22
and CLIQS v.1 in dendrogram building and interpreting the results.
Results: Seventeen strains of the genus Kocuria were isolated from 90 sample
collected from human skin. These strains appeared as coccoid Gram positive cells
and had smooth yellow colonies, slightly convex. Three strains were related to K.
palustris and fourteen strains were related to K. rhizophila. The morphological
dendrogram built upon 76 phenetic characters, and divided to three clusters with
similarity ratio of 94-99%. Eight strains were analyzed for their 16S ribosomal RNA
gene sequences and compared with NCBI by using BLAST which gave 94-97 %
similarity with reference strains. The whole cell protein profile was analyzed by
CLIQS v.1, similarity ratio ranged from 29-100% among strains in dendrogram.
Analysis of amino acids composition in cell wall using paper chromatography
showed four amino acids, alanine, glutamic acid, glycine and lysine.
Conclusion: The study showed good relatedness among strains of K. palustris and
K. rhizophila according to morphological and biochemical tests and phylogenetic
analysis, but low similarity according to whole cell protein bands profile.
mammalian skin, soil and rhizoplane. The aim of this study is to find the relatedness
among several strains of K. palustris and K. rhizophila isolated from healthy and
thalassemia patients according to the biochemical tests, make phylogenetic analysis
to construct a database for whole cell protein band profile of these species.
Methods: Ninety samples were collected from healthy and thalassemia patients
skin in April of 2013, seventeen samples were revealed bacterial isolates. The
diagnosis was performed using conventional biochemical tests , eight of them
analyzed according to their 16S rRNA gene sequence and used as reference to
confirm the diagnosis of other isolates depending on phenetic and protein bands
clustering patterns. Three different software used , IBM SPSS v.19, MEGA 5.22
and CLIQS v.1 in dendrogram building and interpreting the results.
Results: Seventeen strains of the genus Kocuria were isolated from 90 sample
collected from human skin. These strains appeared as coccoid Gram positive cells
and had smooth yellow colonies, slightly convex. Three strains were related to K.
palustris and fourteen strains were related to K. rhizophila. The morphological
dendrogram built upon 76 phenetic characters, and divided to three clusters with
similarity ratio of 94-99%. Eight strains were analyzed for their 16S ribosomal RNA
gene sequences and compared with NCBI by using BLAST which gave 94-97 %
similarity with reference strains. The whole cell protein profile was analyzed by
CLIQS v.1, similarity ratio ranged from 29-100% among strains in dendrogram.
Analysis of amino acids composition in cell wall using paper chromatography
showed four amino acids, alanine, glutamic acid, glycine and lysine.
Conclusion: The study showed good relatedness among strains of K. palustris and
K. rhizophila according to morphological and biochemical tests and phylogenetic
analysis, but low similarity according to whole cell protein bands profile.
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How to Cite
Al Bayatee, M. A. A., & Alsammak, E. G. (2018). Phenetic and Phylogenetic Analysis of Kocuria palustris and Kocuria
rhizophila Strains isolated from Healthy and Thalassemia Persons. Scientific Journal of Medical Research, 2(07), 135–146. https://doi.org/.
Section
Review Article